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Table 3 Consensus rules for the HIV-1 PR data sets.

From: How to find simple and accurate rules for viral protease cleavage specificities

HIV-1 PR 746 peptide set HIV-1 PR 1625 peptide set
HIVA1 P3 {N} HIVA2 P4 {N,C,I}
  P2 {Q,L,K,S}   P2 {Q,K,P,S}
  P1 {G,L,M,F,Y}   P1 {L,M,F,Y}
  P1' {H,I,L,M,F,P,Y,V}   P1' {R,N,D,C,Q,E,K,S,T}
  P2' {R,N,D,G,H,K,P,S}   P2' {R,N,D,G,H,K}
    P3' { K }
HIVB1 P1 {Q,K,T,V} HIVB2 P4 {N,C,I,K,M,F,W,Y}
  P1' {L,F,P,Y}   P3 {N,C,V}
  P2' {R,N,D,G,H,K,S,T,Y}   P2 {K}
  P3' {N,H,I,L,K,P,S}   P1 {R,Q,E,K,T}
  P4' {N,Q,I,M,V}   P1' {R,N,D,C,Q,E,K,S,T}
    P2' {A,C,Q,E,I,L,S,V}
    P3' {A,C,Q,M,F,Y}
HIVC1 P2 {Q,L,K,S} HIVC2 P4 {N,C,I,K,M,F,W,Y}
  P1 {K,T,V}   P3 {N,V}
  P2' {E}   P2 {A,C,I,M,F,V}
  P3' {N}   P1 {R,Q,E,K,P,T}
    P1' {R,N,D,C,Q,E,K,S,T}
    P2' {A,C,Q,I,L,S,V}
    P3' {N,K,P}
HIVD1 P3 {N,C,S,V} HIVD2 P4 {C,I,Y}
  P2 {I,V}   P3 {N,V}
  P1 {Q,K,P,T,V}   P2 {A,C,I,M,F,T,V}
  P1' {D,Q,K,S}   P1 {A,L,M,F,Y}
  P2' {R,N,D,G,K}   P1' {K}
  P3' {N}   P2' {A,E,I,L,S,V}
  P4' {A,N,Q,I,M,W,Y,V}   P3' {N,I,K,P}
HIVE1 P1 {L,M,F,Y} HIVE2 P2 {A,C,I,M,F,V}
  P1' {L,M,F,P,Y}   P1 {R,Q,E,K}
  P4' {A,N,I,M,Y,V}   P2' {A,C,Q,E,I,L,S,T,V}
    P3' {A,C,M,F,Y}
  1. Consensus rules for the HIV-1 PR data sets. The rules are listed in the priority order given by the OSRE method. The text in italics is the label for each rule.